CaCORE::CaBIO::Agent - Perl extension for Agent.
The CaCORE::CaBIO::Agent is a Perl object representation of the CaCORE Agent object.
See CaCORE::ApplicationService.
The following are all the attributes of the Agent object and their data types:
data type: string
string
data type: long
long
data type: boolean
boolean
Note: Although you can also use the corresponding setter methods to set the attribute values, it is not recommended to do so unless you absolutely have to change the object's attributes.
The following are all the objects that are associated with the Agent:
One to many assoication, use getClinicalTrialProtocolCollection to get a collection of associated ClinicalTrialProtocol.
getClinicalTrialProtocolCollection
One to many assoication, use getTargetCollection to get a collection of associated Target.
getTargetCollection
CaCORE::CaBIO::Anomaly - Perl extension for Anomaly.
The CaCORE::CaBIO::Anomaly is a Perl object representation of the CaCORE Anomaly object.
The following are all the attributes of the Anomaly object and their data types:
The following are all the objects that are associated with the Anomaly:
Many to one assoication, use getHistopathology to get the associated Histopathology.
getHistopathology
One to many assoication, use getOrganOntologyCollection to get a collection of associated OrganOntology.
getOrganOntologyCollection
One to many assoication, use getVocabularyCollection to get a collection of associated Vocabulary.
getVocabularyCollection
CaCORE::CaBIO::Chromosome - Perl extension for Chromosome.
The CaCORE::CaBIO::Chromosome is a Perl object representation of the CaCORE Chromosome object.
The following are all the attributes of the Chromosome object and their data types:
The following are all the objects that are associated with the Chromosome:
One to many assoication, use getGeneCollection to get a collection of associated Gene.
getGeneCollection
One to many assoication, use getLocationCollection to get a collection of associated Location.
getLocationCollection
Many to one assoication, use getTaxon to get the associated Taxon.
getTaxon
CaCORE::CaBIO::ClinicalTrialProtocol - Perl extension for ClinicalTrialProtocol.
The CaCORE::CaBIO::ClinicalTrialProtocol is a Perl object representation of the CaCORE ClinicalTrialProtocol object.
The following are all the attributes of the ClinicalTrialProtocol object and their data types:
data type: dateTime
dateTime
The following are all the objects that are associated with the ClinicalTrialProtocol:
One to many assoication, use getAgentCollection to get a collection of associated Agent.
getAgentCollection
One to many assoication, use getDiseaseOntologyCollection to get a collection of associated DiseaseOntology.
getDiseaseOntologyCollection
One to many assoication, use getHistopathologyCollection to get a collection of associated Histopathology.
getHistopathologyCollection
One to many assoication, use getProtocolAssociationCollection to get a collection of associated ProtocolAssociation.
getProtocolAssociationCollection
CaCORE::CaBIO::Clone - Perl extension for Clone.
The CaCORE::CaBIO::Clone is a Perl object representation of the CaCORE Clone object.
The following are all the attributes of the Clone object and their data types:
The following are all the objects that are associated with the Clone:
One to many assoication, use getCloneRelativeLocationCollection to get a collection of associated CloneRelativeLocation.
getCloneRelativeLocationCollection
Many to one assoication, use getLibrary to get the associated Library.
getLibrary
One to many assoication, use getNucleicAcidSequenceCollection to get a collection of associated NucleicAcidSequence.
getNucleicAcidSequenceCollection
One to many assoication, use getTaxonCollection to get a collection of associated Taxon.
getTaxonCollection
CaCORE::CaBIO::CloneRelativeLocation - Perl extension for CloneRelativeLocation.
The CaCORE::CaBIO::CloneRelativeLocation is a Perl object representation of the CaCORE CloneRelativeLocation object.
The following are all the attributes of the CloneRelativeLocation object and their data types:
The following are all the objects that are associated with the CloneRelativeLocation:
Many to one assoication, use getClone to get the associated Clone.
getClone
Many to one assoication, use getNucleicAcidSequence to get the associated NucleicAcidSequence.
getNucleicAcidSequence
CaCORE::CaBIO::Cytoband - Perl extension for Cytoband.
The CaCORE::CaBIO::Cytoband is a Perl object representation of the CaCORE Cytoband object.
The following are all the attributes of the Cytoband object and their data types:
The following are all the objects that are associated with the Cytoband:
Many to one assoication, use getPhysicalLocation to get the associated PhysicalLocation.
getPhysicalLocation
CaCORE::CaBIO::CytogeneticLocation - Perl extension for CytogeneticLocation.
The CaCORE::CaBIO::CytogeneticLocation is a Perl object representation of the CaCORE CytogeneticLocation object.
CytogeneticLocation extends from domain object "Location".
The following are all the attributes of the CytogeneticLocation object and their data types:
The following are all the objects that are associated with the CytogeneticLocation:
Many to one assoication, use getEndCytoband to get the associated EndCytoband.
getEndCytoband
Many to one assoication, use getStartCytoband to get the associated StartCytoband.
getStartCytoband
CaCORE::CaBIO::DiseaseOntology - Perl extension for DiseaseOntology.
The CaCORE::CaBIO::DiseaseOntology is a Perl object representation of the CaCORE DiseaseOntology object.
The following are all the attributes of the DiseaseOntology object and their data types:
The following are all the objects that are associated with the DiseaseOntology:
One to many assoication, use getChildDiseaseOntologyRelationshipCollection to get a collection of associated ChildDiseaseOntologyRelationship.
getChildDiseaseOntologyRelationshipCollection
One to many assoication, use getParentDiseaseOntologyRelationshipCollection to get a collection of associated ParentDiseaseOntologyRelationship.
getParentDiseaseOntologyRelationshipCollection
CaCORE::CaBIO::DiseaseOntologyRelationship - Perl extension for DiseaseOntologyRelationship.
The CaCORE::CaBIO::DiseaseOntologyRelationship is a Perl object representation of the CaCORE DiseaseOntologyRelationship object.
The following are all the attributes of the DiseaseOntologyRelationship object and their data types:
The following are all the objects that are associated with the DiseaseOntologyRelationship:
Many to one assoication, use getChildDiseaseOntology to get the associated ChildDiseaseOntology.
getChildDiseaseOntology
Many to one assoication, use getParentDiseaseOntology to get the associated ParentDiseaseOntology.
getParentDiseaseOntology
CaCORE::CaBIO::Gene - Perl extension for Gene.
The CaCORE::CaBIO::Gene is a Perl object representation of the CaCORE Gene object.
The following are all the attributes of the Gene object and their data types:
The following are all the objects that are associated with the Gene:
Many to one assoication, use getChromosome to get the associated Chromosome.
getChromosome
One to many assoication, use getDatabaseCrossReferenceCollection to get a collection of associated DatabaseCrossReference.
getDatabaseCrossReferenceCollection
One to many assoication, use getGeneAliasCollection to get a collection of associated GeneAlias.
getGeneAliasCollection
One to many assoication, use getGeneOntologyCollection to get a collection of associated GeneOntology.
getGeneOntologyCollection
One to many assoication, use getGeneRelativeLocationCollection to get a collection of associated GeneRelativeLocation.
getGeneRelativeLocationCollection
One to many assoication, use getGenericReporterCollection to get a collection of associated GenericReporter.
getGenericReporterCollection
One to many assoication, use getHomologousAssociationCollection to get a collection of associated HomologousAssociation.
getHomologousAssociationCollection
One to many assoication, use getLibraryCollection to get a collection of associated Library.
getLibraryCollection
One to many assoication, use getPathwayCollection to get a collection of associated Pathway.
getPathwayCollection
One to many assoication, use getProteinCollection to get a collection of associated Protein.
getProteinCollection
CaCORE::CaBIO::GeneAlias - Perl extension for GeneAlias.
The CaCORE::CaBIO::GeneAlias is a Perl object representation of the CaCORE GeneAlias object.
The following are all the attributes of the GeneAlias object and their data types:
The following are all the objects that are associated with the GeneAlias:
CaCORE::CaBIO::GeneOntology - Perl extension for GeneOntology.
The CaCORE::CaBIO::GeneOntology is a Perl object representation of the CaCORE GeneOntology object.
The following are all the attributes of the GeneOntology object and their data types:
The following are all the objects that are associated with the GeneOntology:
One to many assoication, use getChildGeneOntologyRelationshipCollection to get a collection of associated ChildGeneOntologyRelationship.
getChildGeneOntologyRelationshipCollection
One to many assoication, use getParentGeneOntologyRelationshipCollection to get a collection of associated ParentGeneOntologyRelationship.
getParentGeneOntologyRelationshipCollection
CaCORE::CaBIO::GeneOntologyRelationship - Perl extension for GeneOntologyRelationship.
The CaCORE::CaBIO::GeneOntologyRelationship is a Perl object representation of the CaCORE GeneOntologyRelationship object.
The following are all the attributes of the GeneOntologyRelationship object and their data types:
The following are all the objects that are associated with the GeneOntologyRelationship:
Many to one assoication, use getChildGeneOntology to get the associated ChildGeneOntology.
getChildGeneOntology
Many to one assoication, use getParentGeneOntology to get the associated ParentGeneOntology.
getParentGeneOntology
CaCORE::CaBIO::GeneRelativeLocation - Perl extension for GeneRelativeLocation.
The CaCORE::CaBIO::GeneRelativeLocation is a Perl object representation of the CaCORE GeneRelativeLocation object.
The following are all the attributes of the GeneRelativeLocation object and their data types:
The following are all the objects that are associated with the GeneRelativeLocation:
CaCORE::CaBIO::GenericArray - Perl extension for GenericArray.
The CaCORE::CaBIO::GenericArray is a Perl object representation of the CaCORE GenericArray object.
The following are all the attributes of the GenericArray object and their data types:
The following are all the objects that are associated with the GenericArray:
CaCORE::CaBIO::GenericReporter - Perl extension for GenericReporter.
The CaCORE::CaBIO::GenericReporter is a Perl object representation of the CaCORE GenericReporter object.
The following are all the attributes of the GenericReporter object and their data types:
The following are all the objects that are associated with the GenericReporter:
Many to one assoication, use getGene to get the associated Gene.
getGene
One to many assoication, use getGenericArrayCollection to get a collection of associated GenericArray.
getGenericArrayCollection
CaCORE::CaBIO::Histopathology - Perl extension for Histopathology.
The CaCORE::CaBIO::Histopathology is a Perl object representation of the CaCORE Histopathology object.
The following are all the attributes of the Histopathology object and their data types:
data type: float
float
The following are all the objects that are associated with the Histopathology:
One to many assoication, use getAnomalyCollection to get a collection of associated Anomaly.
getAnomalyCollection
Many to one assoication, use getDiseaseOntology to get the associated DiseaseOntology.
getDiseaseOntology
One to many assoication, use getMetastasisCollection to get a collection of associated Metastasis.
getMetastasisCollection
Many to one assoication, use getOrganOntology to get the associated OrganOntology.
getOrganOntology
CaCORE::CaBIO::HomologousAssociation - Perl extension for HomologousAssociation.
The CaCORE::CaBIO::HomologousAssociation is a Perl object representation of the CaCORE HomologousAssociation object.
The following are all the attributes of the HomologousAssociation object and their data types:
The following are all the objects that are associated with the HomologousAssociation:
Many to one assoication, use getHomologousGene to get the associated HomologousGene.
getHomologousGene
CaCORE::CaBIO::Library - Perl extension for Library.
The CaCORE::CaBIO::Library is a Perl object representation of the CaCORE Library object.
The following are all the attributes of the Library object and their data types:
The following are all the objects that are associated with the Library:
One to many assoication, use getCloneCollection to get a collection of associated Clone.
getCloneCollection
Many to one assoication, use getProtocol to get the associated Protocol.
getProtocol
Many to one assoication, use getTissue to get the associated Tissue.
getTissue
CaCORE::CaBIO::Location - Perl extension for Location.
The CaCORE::CaBIO::Location is a Perl object representation of the CaCORE Location object.
The following are all the attributes of the Location object and their data types:
The following are all the objects that are associated with the Location:
Many to one assoication, use getSNP to get the associated SNP.
getSNP
CaCORE::CaBIO::NucleicAcidSequence - Perl extension for NucleicAcidSequence.
The CaCORE::CaBIO::NucleicAcidSequence is a Perl object representation of the CaCORE NucleicAcidSequence object.
The following are all the attributes of the NucleicAcidSequence object and their data types:
The following are all the objects that are associated with the NucleicAcidSequence:
Many to one assoication, use getCloneRelativeLocation to get the associated CloneRelativeLocation.
getCloneRelativeLocation
CaCORE::CaBIO::OrganOntology - Perl extension for OrganOntology.
The CaCORE::CaBIO::OrganOntology is a Perl object representation of the CaCORE OrganOntology object.
The following are all the attributes of the OrganOntology object and their data types:
The following are all the objects that are associated with the OrganOntology:
One to many assoication, use getChildOrganOntologyRelationshipCollection to get a collection of associated ChildOrganOntologyRelationship.
getChildOrganOntologyRelationshipCollection
One to many assoication, use getParentOrganOntologyRelationshipCollection to get a collection of associated ParentOrganOntologyRelationship.
getParentOrganOntologyRelationshipCollection
CaCORE::CaBIO::OrganOntologyRelationship - Perl extension for OrganOntologyRelationship.
The CaCORE::CaBIO::OrganOntologyRelationship is a Perl object representation of the CaCORE OrganOntologyRelationship object.
The following are all the attributes of the OrganOntologyRelationship object and their data types:
The following are all the objects that are associated with the OrganOntologyRelationship:
Many to one assoication, use getChildOrganOntology to get the associated ChildOrganOntology.
getChildOrganOntology
Many to one assoication, use getParentOrganOntology to get the associated ParentOrganOntology.
getParentOrganOntology
CaCORE::CaBIO::Pathway - Perl extension for Pathway.
The CaCORE::CaBIO::Pathway is a Perl object representation of the CaCORE Pathway object.
The following are all the attributes of the Pathway object and their data types:
The following are all the objects that are associated with the Pathway:
CaCORE::CaBIO::PhysicalLocation - Perl extension for PhysicalLocation.
The CaCORE::CaBIO::PhysicalLocation is a Perl object representation of the CaCORE PhysicalLocation object.
PhysicalLocation extends from domain object "Location".
The following are all the attributes of the PhysicalLocation object and their data types:
The following are all the objects that are associated with the PhysicalLocation:
One to many assoication, use getCytobandCollection to get a collection of associated Cytoband.
getCytobandCollection
CaCORE::CaBIO::PopulationFrequency - Perl extension for PopulationFrequency.
The CaCORE::CaBIO::PopulationFrequency is a Perl object representation of the CaCORE PopulationFrequency object.
The following are all the attributes of the PopulationFrequency object and their data types:
data type: double
double
The following are all the objects that are associated with the PopulationFrequency:
CaCORE::CaBIO::Protein - Perl extension for Protein.
The CaCORE::CaBIO::Protein is a Perl object representation of the CaCORE Protein object.
The following are all the attributes of the Protein object and their data types:
The following are all the objects that are associated with the Protein:
One to many assoication, use getKeywordsCollection to get a collection of associated Keywords.
getKeywordsCollection
One to many assoication, use getProteinAliasCollection to get a collection of associated ProteinAlias.
getProteinAliasCollection
Many to one assoication, use getProteinSequence to get the associated ProteinSequence.
getProteinSequence
One to many assoication, use getSecondaryAccessionCollection to get a collection of associated SecondaryAccession.
getSecondaryAccessionCollection
CaCORE::CaBIO::ProteinAlias - Perl extension for ProteinAlias.
The CaCORE::CaBIO::ProteinAlias is a Perl object representation of the CaCORE ProteinAlias object.
The following are all the attributes of the ProteinAlias object and their data types:
The following are all the objects that are associated with the ProteinAlias:
CaCORE::CaBIO::ProteinSequence - Perl extension for ProteinSequence.
The CaCORE::CaBIO::ProteinSequence is a Perl object representation of the CaCORE ProteinSequence object.
The following are all the attributes of the ProteinSequence object and their data types:
The following are all the objects that are associated with the ProteinSequence:
Many to one assoication, use getProtein to get the associated Protein.
getProtein
CaCORE::CaBIO::Protocol - Perl extension for Protocol.
The CaCORE::CaBIO::Protocol is a Perl object representation of the CaCORE Protocol object.
The following are all the attributes of the Protocol object and their data types:
The following are all the objects that are associated with the Protocol:
One to many assoication, use getTissueCollection to get a collection of associated Tissue.
getTissueCollection
CaCORE::CaBIO::ProtocolAssociation - Perl extension for ProtocolAssociation.
The CaCORE::CaBIO::ProtocolAssociation is a Perl object representation of the CaCORE ProtocolAssociation object.
The following are all the attributes of the ProtocolAssociation object and their data types:
The following are all the objects that are associated with the ProtocolAssociation:
Many to one assoication, use getClinicalTrialProtocol to get the associated ClinicalTrialProtocol.
getClinicalTrialProtocol
CaCORE::CaBIO::SNP - Perl extension for SNP.
The CaCORE::CaBIO::SNP is a Perl object representation of the CaCORE SNP object.
The following are all the attributes of the SNP object and their data types:
The following are all the objects that are associated with the SNP:
One to many assoication, use getPopulationFrequencyCollection to get a collection of associated PopulationFrequency.
getPopulationFrequencyCollection
CaCORE::CaBIO::Target - Perl extension for Target.
The CaCORE::CaBIO::Target is a Perl object representation of the CaCORE Target object.
The following are all the attributes of the Target object and their data types:
The following are all the objects that are associated with the Target:
CaCORE::CaBIO::Taxon - Perl extension for Taxon.
The CaCORE::CaBIO::Taxon is a Perl object representation of the CaCORE Taxon object.
The following are all the attributes of the Taxon object and their data types:
The following are all the objects that are associated with the Taxon:
One to many assoication, use getChromosomeCollection to get a collection of associated Chromosome.
getChromosomeCollection
CaCORE::CaBIO::Tissue - Perl extension for Tissue.
The CaCORE::CaBIO::Tissue is a Perl object representation of the CaCORE Tissue object.
The following are all the attributes of the Tissue object and their data types:
The following are all the objects that are associated with the Tissue:
CaCORE::CaBIO::Vocabulary - Perl extension for Vocabulary.
The CaCORE::CaBIO::Vocabulary is a Perl object representation of the CaCORE Vocabulary object.
The following are all the attributes of the Vocabulary object and their data types:
The following are all the objects that are associated with the Vocabulary:
Please do not contact author directly. Send email to ncicb@pop.nci.nih.gov to request support or report a bug.
Shan Jiang <jiangs@mail.nih.gov>
The CaCORE Software License, Version 1.0
Copyright 2001-2005 SAIC. This software was developed in conjunction with the National Cancer Institute, and so to the extent government employees are co-authors, any rights in such works shall be subject to Title 17 of the United States Code, section 105. Redistribution and use in source and binary forms, with or without modification, are permitted provided that the following conditions are met:
Redistributions of source code must retain the above copyright notice, this list of conditions and the disclaimer of Article 5, below. Redistributions in binary form must reproduce the above copyright notice, this list of conditions and the disclaimer of Article 5 in the documentation and/or other materials provided with the distribution.
The end-user documentation included with the redistribution, if any, must include the following acknowledgment: "This product includes software developed by SAIC and the National Cancer Institute." If no such end-user documentation is to be included, this acknowledgment shall appear in the software itself, wherever such third-party acknowledgments normally appear.
The names "The National Cancer Institute", "NCI" and "SAIC" must not be used to endorse or promote products derived from this software. This license does not authorize the licensee to use any trademarks owned by either NCI or SAIC.
This license does not authorize or prohibit the incorporation of this software into any third party proprietary programs. Licensee is expressly made responsible for obtaining any permission required to incorporate this software into third party proprietary programs and for informing licensee's end-users of their obligation to secure any required permissions before incorporating this software into third party proprietary software programs.
THIS SOFTWARE IS PROVIDED "AS IS," AND ANY EXPRESSED OR IMPLIED WARRANTIES, (INCLUDING, BUT NOT LIMITED TO, THE IMPLIED WARRANTIES OF MERCHANTABILITY, NON-INFRINGEMENT AND FITNESS FOR A PARTICULAR PURPOSE) ARE DISCLAIMED. IN NO EVENT SHALL THE NATIONAL CANCER INSTITUTE, SAIC, OR THEIR AFFILIATES BE LIABLE FOR ANY DIRECT, INDIRECT, INCIDENTAL, SPECIAL, EXEMPLARY, OR CONSEQUENTIAL DAMAGES (INCLUDING, BUT NOT LIMITED TO, PROCUREMENT OF SUBSTITUTE GOODS OR SERVICES; LOSS OF USE, DATA, OR PROFITS; OR BUSINESS INTERRUPTION) HOWEVER CAUSED AND ON ANY THEORY OF LIABILITY, WHETHER IN CONTRACT, STRICT LIABILITY, OR TORT (INCLUDING NEGLIGENCE OR OTHERWISE) ARISING IN ANY WAY OUT OF THE USE OF THIS SOFTWARE, EVEN IF ADVISED OF THE POSSIBILITY OF SUCH DAMAGE.
To install CaCORE::CaBIO::SNP, copy and paste the appropriate command in to your terminal.
cpanm
cpanm CaCORE::CaBIO::SNP
CPAN shell
perl -MCPAN -e shell install CaCORE::CaBIO::SNP
For more information on module installation, please visit the detailed CPAN module installation guide.